3BXS

Crystal Structures Of Highly Constrained Substrate And Hydrolysis Products Bound To HIV-1 Protease. Implications For Catalytic Mechanism

Structural Biology Knowledgebase: 3BXS SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.205
  • R-Value Work: 0.177

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3BXS

Classification: HYDROLASE

Total Structure Weight: 22544.60

Macromolecule Entities
Molecule Chains Length Organism Details
Protease A, B 99 Human immunodeficiency virus 1 EC#: 3.4.23.16 IUBMB
Fragment: UNP residues 491-589
Mutation: Q7K, L33I, C67X, C95X
Gene Name(s): gag-pol
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
DRS
Query on DRS

A, B (9S,12S)-9-(1-methylethyl)-7,10-dioxo-2-oxa- 8,11-diazabicyclo[12.2.2]octadeca-1(16),14,17- triene-12-carboxylic acid
C19 H26 N2 O5
RRAAROKJUVKWAF-RDJZCZTQSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A, B SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
DRS N/A in BindingDB
Ki: 8000 nM  BindingMOAD
Ki: 8000 nM  PDBbind
Modified Residues 1 Unique
ID Chains Type Formula 2D Diagram Parent
ABA
Query on ABA
A, B L-PEPTIDE LINKING C4 H9 N O2 ALA

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.6 Å
  • R-Value Free: 0.205
  • R-Value Work: 0.177
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 50.87 α = 90.00
b = 57.65 β = 90.00
c = 61.53 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2008-01-14
  • Released Date: 2008-03-25
  • Deposition author(s): Tyndall, J.D., Pattenden, L.K., Reid, R.C., Hu, S.H., Alewood, D., Alewood, P.F., Walsh, T., Fairlie, D.P., Martin, J.L.

Revision History

  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4